Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
Only strains with sufficient reads to estimate fitness are shown,
but the strain fitness values are still rather noisy and may be biased towards zero.
Strains near the edge of a gene are not shown as being associated with that
gene (they are in grey).
Strains in the central 10-90% of a gene are color coded by the insertion's strand.
Usually, "+" means that the selectable marker is encoded on the forward strand,
i.e., transcribed rightward.
500 nt HMPREF1078_RS14985 and HMPREF1078_RS14990 overlap by 81 nucleotides HMPREF1078_RS14990 and HMPREF1078_RS14995 are separated by 141 nucleotides HMPREF1078_RS14995 and HMPREF1078_RS15000 are separated by 110 nucleotides HMPREF1078_RS15000 and HMPREF1078_RS15005 are separated by 401 nucleotides
HMPREF1078_RS14985: HMPREF1078_RS14985 - hypothetical protein, at 50,814 to 51,248
_RS14985
HMPREF1078_RS14990: HMPREF1078_RS14990 - RNA methyltransferase, at 51,168 to 51,938
_RS14990
HMPREF1078_RS14995: HMPREF1078_RS14995 - BamA/TamA family outer membrane protein, at 52,080 to 54,428
_RS14995
HMPREF1078_RS15000: HMPREF1078_RS15000 - tRNA-Arg, at 54,539 to 54,612
_RS15000
HMPREF1078_RS15005: HMPREF1078_RS15005 - biosynthetic arginine decarboxylase, at 55,014 to 56,906
_RS15005
Position (kb) 52
53
54
55 Strain fitness (log2 ratio) -6
-5
-4
-3
-2
-1
0
1
2
3 at 51.134 kb on + strand, within HMPREF1078_RS14985 at 51.135 kb on - strand, within HMPREF1078_RS14985 at 51.170 kb on - strand at 51.170 kb on - strand at 51.170 kb on - strand at 51.231 kb on + strand at 51.231 kb on + strand at 51.231 kb on + strand at 51.278 kb on + strand, within HMPREF1078_RS14990 at 51.279 kb on - strand, within HMPREF1078_RS14990 at 51.319 kb on - strand, within HMPREF1078_RS14990 at 51.319 kb on - strand, within HMPREF1078_RS14990 at 51.376 kb on + strand, within HMPREF1078_RS14990 at 51.377 kb on - strand, within HMPREF1078_RS14990 at 51.377 kb on - strand, within HMPREF1078_RS14990 at 51.377 kb on - strand, within HMPREF1078_RS14990 at 51.402 kb on - strand, within HMPREF1078_RS14990 at 51.461 kb on - strand, within HMPREF1078_RS14990 at 51.471 kb on + strand, within HMPREF1078_RS14990 at 51.472 kb on - strand, within HMPREF1078_RS14990 at 51.472 kb on - strand, within HMPREF1078_RS14990 at 51.472 kb on - strand, within HMPREF1078_RS14990 at 51.549 kb on - strand, within HMPREF1078_RS14990 at 51.580 kb on - strand, within HMPREF1078_RS14990 at 51.609 kb on + strand, within HMPREF1078_RS14990 at 51.610 kb on - strand, within HMPREF1078_RS14990 at 51.639 kb on - strand, within HMPREF1078_RS14990 at 51.690 kb on + strand, within HMPREF1078_RS14990 at 51.691 kb on - strand, within HMPREF1078_RS14990 at 51.691 kb on - strand, within HMPREF1078_RS14990 at 51.691 kb on - strand, within HMPREF1078_RS14990 at 51.887 kb on - strand at 51.913 kb on + strand at 51.951 kb on + strand at 51.964 kb on + strand at 51.965 kb on - strand at 51.983 kb on - strand at 52.003 kb on + strand at 52.003 kb on + strand at 52.049 kb on + strand at 52.105 kb on - strand at 52.140 kb on - strand at 52.153 kb on - strand at 52.171 kb on - strand at 52.171 kb on - strand at 52.214 kb on + strand at 52.422 kb on - strand, within HMPREF1078_RS14995 at 52.434 kb on + strand, within HMPREF1078_RS14995 at 52.436 kb on + strand, within HMPREF1078_RS14995 at 52.436 kb on + strand, within HMPREF1078_RS14995 at 52.437 kb on - strand, within HMPREF1078_RS14995 at 52.460 kb on + strand, within HMPREF1078_RS14995 at 52.461 kb on - strand, within HMPREF1078_RS14995 at 52.512 kb on - strand, within HMPREF1078_RS14995 at 52.536 kb on + strand, within HMPREF1078_RS14995 at 52.536 kb on + strand, within HMPREF1078_RS14995 at 52.559 kb on + strand, within HMPREF1078_RS14995 at 52.560 kb on - strand, within HMPREF1078_RS14995 at 52.563 kb on + strand, within HMPREF1078_RS14995 at 52.568 kb on + strand, within HMPREF1078_RS14995 at 52.568 kb on + strand, within HMPREF1078_RS14995 at 52.627 kb on - strand, within HMPREF1078_RS14995 at 52.641 kb on - strand, within HMPREF1078_RS14995 at 52.641 kb on - strand, within HMPREF1078_RS14995 at 52.734 kb on + strand, within HMPREF1078_RS14995 at 52.752 kb on + strand, within HMPREF1078_RS14995 at 52.753 kb on - strand, within HMPREF1078_RS14995 at 52.762 kb on - strand, within HMPREF1078_RS14995 at 52.762 kb on - strand, within HMPREF1078_RS14995 at 52.762 kb on - strand, within HMPREF1078_RS14995 at 52.763 kb on + strand, within HMPREF1078_RS14995 at 52.796 kb on - strand, within HMPREF1078_RS14995 at 52.861 kb on + strand, within HMPREF1078_RS14995 at 52.872 kb on + strand, within HMPREF1078_RS14995 at 52.875 kb on + strand, within HMPREF1078_RS14995 at 52.876 kb on - strand, within HMPREF1078_RS14995 at 52.944 kb on + strand, within HMPREF1078_RS14995 at 52.978 kb on + strand, within HMPREF1078_RS14995 at 53.001 kb on - strand, within HMPREF1078_RS14995 at 53.033 kb on + strand, within HMPREF1078_RS14995 at 53.052 kb on + strand, within HMPREF1078_RS14995 at 53.053 kb on - strand, within HMPREF1078_RS14995 at 53.053 kb on - strand, within HMPREF1078_RS14995 at 53.117 kb on - strand, within HMPREF1078_RS14995 at 53.117 kb on - strand, within HMPREF1078_RS14995 at 53.162 kb on + strand, within HMPREF1078_RS14995 at 53.266 kb on - strand, within HMPREF1078_RS14995 at 53.315 kb on - strand, within HMPREF1078_RS14995 at 53.325 kb on + strand, within HMPREF1078_RS14995 at 53.596 kb on - strand, within HMPREF1078_RS14995 at 53.615 kb on - strand, within HMPREF1078_RS14995 at 53.709 kb on - strand, within HMPREF1078_RS14995 at 53.711 kb on + strand, within HMPREF1078_RS14995 at 53.715 kb on + strand, within HMPREF1078_RS14995 at 53.716 kb on - strand, within HMPREF1078_RS14995 at 53.916 kb on - strand, within HMPREF1078_RS14995 at 53.964 kb on - strand, within HMPREF1078_RS14995 at 53.964 kb on - strand, within HMPREF1078_RS14995 at 53.978 kb on - strand, within HMPREF1078_RS14995 at 54.034 kb on + strand, within HMPREF1078_RS14995 at 54.034 kb on + strand, within HMPREF1078_RS14995 at 54.035 kb on - strand, within HMPREF1078_RS14995 at 54.179 kb on + strand, within HMPREF1078_RS14995 at 54.271 kb on + strand at 54.332 kb on + strand at 54.390 kb on - strand at 54.444 kb on + strand at 54.444 kb on + strand at 54.445 kb on - strand at 54.445 kb on - strand at 54.448 kb on + strand at 54.448 kb on + strand at 54.457 kb on + strand at 54.457 kb on + strand at 54.458 kb on - strand at 54.461 kb on + strand at 54.461 kb on + strand at 54.637 kb on - strand at 54.650 kb on - strand at 54.666 kb on + strand at 54.668 kb on + strand at 54.669 kb on - strand at 54.685 kb on + strand at 54.685 kb on + strand at 54.686 kb on - strand at 54.692 kb on + strand at 54.693 kb on - strand at 54.708 kb on + strand at 54.708 kb on + strand at 54.708 kb on + strand at 54.709 kb on - strand at 54.709 kb on - strand at 54.709 kb on - strand at 54.709 kb on - strand at 54.709 kb on - strand at 54.754 kb on + strand at 54.755 kb on - strand at 54.760 kb on - strand at 54.783 kb on - strand at 54.847 kb on + strand at 54.880 kb on + strand at 54.881 kb on - strand at 54.881 kb on - strand at 54.881 kb on - strand at 54.881 kb on - strand at 54.882 kb on + strand at 54.884 kb on + strand at 54.885 kb on - strand at 54.889 kb on - strand at 54.896 kb on - strand at 54.898 kb on - strand at 54.902 kb on - strand at 54.915 kb on + strand at 54.919 kb on + strand at 54.920 kb on - strand at 54.935 kb on + strand at 54.936 kb on - strand at 54.936 kb on - strand at 54.936 kb on - strand at 54.936 kb on - strand at 54.962 kb on - strand at 54.965 kb on + strand at 54.966 kb on - strand at 54.966 kb on - strand at 54.966 kb on - strand at 55.050 kb on + strand at 55.050 kb on + strand at 55.050 kb on + strand at 55.077 kb on + strand at 55.077 kb on + strand at 55.078 kb on - strand at 55.078 kb on - strand at 55.085 kb on + strand at 55.085 kb on + strand at 55.086 kb on - strand at 55.105 kb on + strand at 55.105 kb on + strand at 55.105 kb on + strand at 55.112 kb on - strand at 55.172 kb on - strand at 55.192 kb on + strand at 55.192 kb on + strand at 55.211 kb on + strand, within HMPREF1078_RS15005 at 55.211 kb on + strand, within HMPREF1078_RS15005 at 55.269 kb on + strand, within HMPREF1078_RS15005 at 55.270 kb on - strand, within HMPREF1078_RS15005 at 55.295 kb on + strand, within HMPREF1078_RS15005 at 55.296 kb on - strand, within HMPREF1078_RS15005 at 55.370 kb on - strand, within HMPREF1078_RS15005 at 55.421 kb on + strand, within HMPREF1078_RS15005 at 55.421 kb on + strand, within HMPREF1078_RS15005 at 55.422 kb on - strand, within HMPREF1078_RS15005
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 51,134 + HMPREF1078_RS14985 0.74 -2.3 51,135 - HMPREF1078_RS14985 0.74 -1.6 51,170 - -3.2 51,170 - +1.4 51,170 - -0.6 51,231 + -0.4 51,231 + -2.9 51,231 + -2.4 51,278 + HMPREF1078_RS14990 0.14 +0.3 51,279 - HMPREF1078_RS14990 0.14 -0.7 51,319 - HMPREF1078_RS14990 0.20 +2.0 51,319 - HMPREF1078_RS14990 0.20 -1.2 51,376 + HMPREF1078_RS14990 0.27 +0.4 51,377 - HMPREF1078_RS14990 0.27 +0.6 51,377 - HMPREF1078_RS14990 0.27 -2.1 51,377 - HMPREF1078_RS14990 0.27 -0.4 51,402 - HMPREF1078_RS14990 0.30 +0.2 51,461 - HMPREF1078_RS14990 0.38 -1.9 51,471 + HMPREF1078_RS14990 0.39 +1.7 51,472 - HMPREF1078_RS14990 0.39 +2.3 51,472 - HMPREF1078_RS14990 0.39 +1.9 51,472 - HMPREF1078_RS14990 0.39 +2.8 51,549 - HMPREF1078_RS14990 0.49 +0.9 51,580 - HMPREF1078_RS14990 0.53 +0.1 51,609 + HMPREF1078_RS14990 0.57 +2.7 51,610 - HMPREF1078_RS14990 0.57 -0.7 51,639 - HMPREF1078_RS14990 0.61 +3.0 51,690 + HMPREF1078_RS14990 0.68 +0.9 51,691 - HMPREF1078_RS14990 0.68 +2.8 51,691 - HMPREF1078_RS14990 0.68 -1.9 51,691 - HMPREF1078_RS14990 0.68 +3.2 51,887 - +2.0 51,913 + -0.6 51,951 + +1.3 51,964 + -0.6 51,965 - -1.9 51,983 - +0.2 52,003 + +0.6 52,003 + -2.9 52,049 + +1.2 52,105 - -0.7 52,140 - -5.7 52,153 - -3.5 52,171 - -2.2 52,171 - -5.1 52,214 + -3.7 52,422 - HMPREF1078_RS14995 0.15 -1.3 52,434 + HMPREF1078_RS14995 0.15 -2.9 52,436 + HMPREF1078_RS14995 0.15 -1.1 52,436 + HMPREF1078_RS14995 0.15 -4.9 52,437 - HMPREF1078_RS14995 0.15 -3.6 52,460 + HMPREF1078_RS14995 0.16 -2.0 52,461 - HMPREF1078_RS14995 0.16 -3.4 52,512 - HMPREF1078_RS14995 0.18 -6.2 52,536 + HMPREF1078_RS14995 0.19 -1.4 52,536 + HMPREF1078_RS14995 0.19 -0.4 52,559 + HMPREF1078_RS14995 0.20 -3.2 52,560 - HMPREF1078_RS14995 0.20 -3.6 52,563 + HMPREF1078_RS14995 0.21 +0.1 52,568 + HMPREF1078_RS14995 0.21 -4.8 52,568 + HMPREF1078_RS14995 0.21 -2.5 52,627 - HMPREF1078_RS14995 0.23 -4.1 52,641 - HMPREF1078_RS14995 0.24 -3.8 52,641 - HMPREF1078_RS14995 0.24 -3.9 52,734 + HMPREF1078_RS14995 0.28 -3.7 52,752 + HMPREF1078_RS14995 0.29 -5.3 52,753 - HMPREF1078_RS14995 0.29 -1.8 52,762 - HMPREF1078_RS14995 0.29 -1.9 52,762 - HMPREF1078_RS14995 0.29 -0.9 52,762 - HMPREF1078_RS14995 0.29 -4.1 52,763 + HMPREF1078_RS14995 0.29 -4.3 52,796 - HMPREF1078_RS14995 0.30 -3.7 52,861 + HMPREF1078_RS14995 0.33 -1.5 52,872 + HMPREF1078_RS14995 0.34 -2.1 52,875 + HMPREF1078_RS14995 0.34 -3.9 52,876 - HMPREF1078_RS14995 0.34 -3.1 52,944 + HMPREF1078_RS14995 0.37 -2.5 52,978 + HMPREF1078_RS14995 0.38 -3.7 53,001 - HMPREF1078_RS14995 0.39 -2.9 53,033 + HMPREF1078_RS14995 0.41 -1.5 53,052 + HMPREF1078_RS14995 0.41 -1.7 53,053 - HMPREF1078_RS14995 0.41 -4.6 53,053 - HMPREF1078_RS14995 0.41 -1.0 53,117 - HMPREF1078_RS14995 0.44 -2.9 53,117 - HMPREF1078_RS14995 0.44 -6.6 53,162 + HMPREF1078_RS14995 0.46 -3.8 53,266 - HMPREF1078_RS14995 0.50 -1.9 53,315 - HMPREF1078_RS14995 0.53 +0.5 53,325 + HMPREF1078_RS14995 0.53 -5.9 53,596 - HMPREF1078_RS14995 0.65 -4.3 53,615 - HMPREF1078_RS14995 0.65 -1.5 53,709 - HMPREF1078_RS14995 0.69 -1.6 53,711 + HMPREF1078_RS14995 0.69 -5.0 53,715 + HMPREF1078_RS14995 0.70 -4.3 53,716 - HMPREF1078_RS14995 0.70 -1.3 53,916 - HMPREF1078_RS14995 0.78 -2.5 53,964 - HMPREF1078_RS14995 0.80 -3.3 53,964 - HMPREF1078_RS14995 0.80 +0.1 53,978 - HMPREF1078_RS14995 0.81 -0.2 54,034 + HMPREF1078_RS14995 0.83 -2.8 54,034 + HMPREF1078_RS14995 0.83 -3.9 54,035 - HMPREF1078_RS14995 0.83 -3.5 54,179 + HMPREF1078_RS14995 0.89 -2.9 54,271 + -2.5 54,332 + -1.4 54,390 - -3.5 54,444 + -0.5 54,444 + +0.7 54,445 - -1.2 54,445 - +0.5 54,448 + +2.1 54,448 + +0.4 54,457 + +1.1 54,457 + -1.0 54,458 - +1.6 54,461 + -0.4 54,461 + -1.0 54,637 - +0.4 54,650 - -2.2 54,666 + -2.0 54,668 + -0.7 54,669 - -1.0 54,685 + -1.4 54,685 + -1.2 54,686 - +1.7 54,692 + +0.3 54,693 - +0.2 54,708 + -0.6 54,708 + -1.2 54,708 + +1.1 54,709 - -0.0 54,709 - +0.2 54,709 - -1.1 54,709 - -0.2 54,709 - -1.2 54,754 + -1.3 54,755 - -0.2 54,760 - +1.1 54,783 - +2.6 54,847 + +1.8 54,880 + -1.4 54,881 - -1.2 54,881 - -1.2 54,881 - -3.4 54,881 - -2.0 54,882 + +2.5 54,884 + -3.3 54,885 - -2.9 54,889 - -3.4 54,896 - -1.8 54,898 - -3.5 54,902 - -3.7 54,915 + +0.3 54,919 + +0.7 54,920 - -3.1 54,935 + -0.4 54,936 - -1.6 54,936 - -0.2 54,936 - -0.7 54,936 - -0.7 54,962 - -3.9 54,965 + -1.4 54,966 - +0.6 54,966 - -3.8 54,966 - -4.7 55,050 + -3.7 55,050 + -3.7 55,050 + -3.5 55,077 + -2.7 55,077 + -3.4 55,078 - -1.3 55,078 - -3.9 55,085 + -1.8 55,085 + -2.5 55,086 - -2.0 55,105 + -2.4 55,105 + -1.2 55,105 + -0.4 55,112 - -3.7 55,172 - -2.9 55,192 + -3.1 55,192 + -0.8 55,211 + HMPREF1078_RS15005 0.10 -3.8 55,211 + HMPREF1078_RS15005 0.10 -2.7 55,269 + HMPREF1078_RS15005 0.13 -2.8 55,270 - HMPREF1078_RS15005 0.14 -3.0 55,295 + HMPREF1078_RS15005 0.15 -2.2 55,296 - HMPREF1078_RS15005 0.15 -3.9 55,370 - HMPREF1078_RS15005 0.19 -3.9 55,421 + HMPREF1078_RS15005 0.22 -1.2 55,421 + HMPREF1078_RS15005 0.22 -4.2 55,422 - HMPREF1078_RS15005 0.22 -3.6
Or see this region's nucleotide sequence